Analysis and visualization of neurons that form a synapse onto itself
autapse_checker_entire_synapse_table.ipynb
notebook: a simple method to identify potential autapses from the
Layer 2/3 synapse table (pni_synapses_v185.csv).
autapses_rm_nonneuronal.csv
datatable: a human-curated (by me) data table that removed the
vascular and glial cell ids. This resulted in a list of 27 potential
neuronal autapses. The electron micrographs for each of these were
manually checked in neuroglancer and 3 of the 24 were determined to be
true autapses. The remaining 24 were due to segmentation errors or edge
artifacts.
[`notebook](): analysis and visualization of the three true autapses as well as some example segmentation errors from theautapses_rm_nonneuronal.csv`
datatable.
In an inhibitory basket neuron (cell id 648518346349528994)
inhibitory basket neuron autapse
In an excitatory pyramidal neuron (cell id 648518346349538718)
pyramidal neuron autapse
In an excitatory pyramidal neuron (cell id 648518346349539853)
pyramidal neuron autapse
Two dendritic spines from the same neuron in contact with one another where the synapse is assigned to the neuron; however upon inspection of the electron micrographs in Neuroglancer, there is an axon passing between the two spines and the segmentation algorithm failed to assign the synapse to the axon.
segmentation error between two spines with an axon passing between
A nuclear membrane mis-segmented as a synaptic membrane. This particular example shows an invagination of the nuclear membrane that was interpreted by the segmentation algorithm as a synapse.
segmentation error where a nuclear membrane is assigned as a synapse
The anchoring filament of a neuronal primary cilia is mis-segmented as a synapse.
segmentation error where an anchoring filament of the neuronal primary cilia is assigned as a synapse